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MCL coexpression mm9:470: Difference between revisions

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{{MCL_coexpression_mm9
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DNA binding;0.0335241425283526;22326!GO:0007406;negative regulation of neuroblast 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|coexpression_dpi_cluster_scores_median=0.064513712786576,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0354470656487682,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0856562580541553,0,0,0,0,0,0,0,0,0,0,0.94891846674728,1.06188156333632,0.872211387060776,0,0,0,0,0,0.203902841136986,0.461755469813111,0.521519946201546,0.652513010251182,0.461337122353058,0.330941898710929,0.490840557167292,0.594630643781883,0.542908376641686,0.747884995716671,0.322458878535173,0.196811040770603,0.208018178957679,0.93354708681685,0.945942443292194,0.930311050745528,0.468741283663409,0.327466262382121,0.361258395088612,0.464096082549399,0.483394506022821,0.610076995507413,0,0,0,0,0,0,0,0,0,0,0,0,0.0572260417947564,0,0,0,0,0,0,0,0,0,0.129358133846345,0.0577162951573975,0.0901223798974778,0.06097065795378,0.0700056732683379,0.0257048884249574,0.136368432150639,0,0,0,0,0,0,0,0.0412933681609532,0,0,0,0,0.0606187686764715,0.0818043715271035,0.449566312134911,0,0,0.180674582376222,0.154456245262262,0,0,0,0,0.216288751339142,0.227811226745756,0.255656720732355,0.296258486670709,0.157946680507561,0.171708190463817,0.152559101774318,0,0.21661553485341,0.2668337317456,0.12723547438903,0.108407878707751,0.0779555780616976,0,0,0.0788315948399074,0,0,0,0,0,0.0719048481885784,0,0,0,0,0,0,0,0,0,0,0,0,0.152465664603217,0.346014139653517,0,0,0.119129528926274,0.128187800254637,0.0526429550379996,0,0,0,0,0,0,0,0,0,0,0,0.0889693870506597,0.0681780861044218,0,0,0,0.0147194505648231,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.107460083713207,0.0655666358230307,0.0680912293502604,0.091558018055706,0.0672592169170953,0.0463679768904873,0,0,0,0,0,0,0,0,0,0,0,0.120936080462619,0.111161792300979,0,0,0,0,0.0792784932768977,0,0,0,0,0.111348509539896,0,0.121008441369486,0.0056965295306476,0,0,0,0,0.0943944778653996,0.057359448163414,0.107018899878872,0.112371000179637,0.116420155980149,0,0,0,0,0,0,0.907678896478537,0.693009792895774,0.740916826710143,0.917839637896118,1.08842737202424,1.11490660765832,0.972491304882327,1.07648792141505,0,0,0,0.0331417600494206,0,0,0,0,0,0.0738741926906438,0,0.0407433005351683,0,0,0,0,0,0,0,0,0.119366756704732,0.0401904713554668,0.0445418537893845,0,0,0,0,0,0,0,0,0.0870677207267127,0.0332484050430722,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0,0.0344366018768346,0,0,0,0,0.00981822823732075,0,0.261822634350381,0.341844807303808,0.306296679291175,0.320239623866024,0.200800256080882,0.135986724295729,0.159715578577694,0.149856261570464,0.120876255993453,0.17765030293269,0.098117166361508,0.194758206527804,0.12284457341731,0.141183443972418,0.137680107711779,0.084586381933092,0.0885986263327829,0.09115519359146,0.14986111676545,0.156567915037224,0.128033729919821,0.131923786075207,0.169342968499384,0.110822898586572,0.119917869835527,0.177626350552718,0.162697864073649,0.105708353215847,0.162577029239352,0.025385381185741,0.0705764529867414,0.105545889199769,0.148982201447044,0.141505433941488,0.174446342201257,0.326432551594213,0.091291089277545,0.0789611125651497,0.0760168881589905,0,0
|gostat_on_MCL_coexpression=GO:0031490;chromatin DNA binding;0.0335241425283526;22326!GO:0007406;negative regulation of neuroblast proliferation;0.0335241425283526;22326!
}}

Latest revision as of 15:21, 17 September 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr19:59245978..59245982,-p1@Vax1
Mm9::chr2:157385838..157385855,+p1@Nnat
Mm9::chr2:157387453..157387467,+p@chr2:157387453..157387467
+
Mm9::chr2:157387508..157387519,+p@chr2:157387508..157387519
+
Mm9::chr2:157387588..157387620,-p@chr2:157387588..157387620
-
Mm9::chr2:157387609..157387632,+p@chr2:157387609..157387632
+
Mm9::chr2:157387638..157387650,+p@chr2:157387638..157387650
+
Mm9::chr2:157387715..157387750,-p@chr2:157387715..157387750
-
Mm9::chr2:157387765..157387768,+p@chr2:157387765..157387768
+
Mm9::chr2:157387844..157387880,+p@chr2:157387844..157387880
+
Mm9::chr2:157387891..157387954,+p@chr2:157387891..157387954
+
Mm9::chr2:157388016..157388027,+p@chr2:157388016..157388027
+
Mm9::chr2:157388030..157388056,+p@chr2:157388030..157388056
+
Mm9::chr2:162948341..162948356,+p1@ENSMUST00000144092
Mm9::chr2:31495237..31495243,+p1@Prdm12
Mm9::chr4:128905127..128905167,-p3@C77080


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

GO IDGO nameFDR corrected p-value
GO:0031490chromatin DNA binding0.0335241425283526
GO:0007406negative regulation of neuroblast proliferation0.0335241425283526



Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
neurectoderm1.55e-1764
neural plate1.55e-1764
presumptive neural plate1.55e-1764
central nervous system2.58e-1773
regional part of nervous system3.88e-1754
ectoderm-derived structure1.33e-1695
ectoderm1.33e-1695
presumptive ectoderm1.33e-1695
nervous system2.48e-1675
neural tube1.54e-1552
neural rod1.54e-1552
future spinal cord1.54e-1552
neural keel1.54e-1552
ecto-epithelium4.86e-1573
pre-chordal neural plate1.34e-1449
brain2.64e-1247
future brain2.64e-1247
regional part of brain6.47e-1246
anterior neural tube6.70e-1240
regional part of forebrain9.80e-1239
forebrain9.80e-1239
future forebrain9.80e-1239
structure with developmental contribution from neural crest1.32e-1192
diencephalon1.53e-0910
future diencephalon1.53e-0910
pituitary gland1.29e-088
gland of diencephalon1.29e-088
neuroendocrine gland1.29e-088
gray matter3.03e-0834
basal ganglion4.56e-078
nuclear complex of neuraxis4.56e-078
aggregate regional part of brain4.56e-078
collection of basal ganglia4.56e-078
cerebral subcortex4.56e-078


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)
MA0003.10.0274787
MA0004.10.221835
MA0006.10.105852
MA0007.13.32561
MA0009.10.599391
MA0014.10.0349468
MA0017.10.122138
MA0019.10.434009
MA0024.10.558971
MA0025.10.819843
MA0027.12.21717
MA0028.10.112137
MA0029.10.53905
MA0030.10.545058
MA0031.10.512616
MA0038.10.33811
MA0040.10.611015
MA0041.10.166538
MA0042.10.15744
MA0043.10.689898
MA0046.10.632833
MA0048.10.219669
MA0050.10.251816
MA0051.10.345658
MA0052.10.618515
MA0055.11.94636
MA0056.10
MA0057.12.67464
MA0058.10.464825
MA0059.10.161227
MA0060.10.0623353
MA0061.11.42881
MA0063.10
MA0066.10.328887
MA0067.10.92691
MA0068.11.33583
MA0069.11.50068
MA0070.10.609808
MA0071.10.251158
MA0072.10.601934
MA0073.16.80696
MA0074.10.299171
MA0076.10.134359
MA0077.10.581866
MA0078.11.7344
MA0081.10.177433
MA0083.10.68915
MA0084.11.24749
MA0087.10.648637
MA0088.10.969
MA0089.10
MA0090.11.70521
MA0091.10.655274
MA0092.10.571528
MA0093.10.374263
MA0095.10
MA0098.10
MA0100.10.289731
MA0101.10.167439
MA0103.10.805091
MA0105.15.3322
MA0106.10.380511
MA0107.10.125067
MA0108.20.454274
MA0109.10
MA0111.11.12477
MA0113.12.5255
MA0114.10.947046
MA0115.10.692537
MA0116.11.15654
MA0117.10.662171
MA0119.10.16785
MA0122.10.680832
MA0124.10.875485
MA0125.10.804312
MA0130.10
MA0131.10.43
MA0132.10
MA0133.10
MA0135.10.724328
MA0136.10.315568
MA0139.10.406429
MA0140.10.289637
MA0141.12.68809
MA0142.10.499475
MA0143.10.37032
MA0144.10.268209
MA0145.10.277688
MA0146.10.108029
MA0147.10.0844713
MA0148.10.23425
MA0149.10.171305
MA0062.20.0332891
MA0035.20.293466
MA0039.21.19495
MA0138.20.423003
MA0002.20.049318
MA0137.20.432446
MA0104.20.204256
MA0047.20.337465
MA0112.20.00977202
MA0065.213.1202
MA0150.11.13926
MA0151.10
MA0152.10.337555
MA0153.10.740107
MA0154.10.215016
MA0155.11.53888
MA0156.10.133796
MA0157.10.47062
MA0158.10
MA0159.11.04823
MA0160.10.666246
MA0161.10
MA0162.10.787943
MA0163.17.17179
MA0164.10.315868
MA0080.20.125629
MA0018.20.865591
MA0099.20.417463
MA0079.26.98408
MA0102.21.29919
MA0258.10.0692929
MA0259.10.270549
MA0442.10
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